Systems and Methods for Meso-Dissection

2. The instrument of claim 1, wherein the operations further comprise generating a milling annotation based on the one or more annotations.

3. The instrument of claim 2, wherein the operations further comprise mapping the milling annotation back to the annotated reference image.

4. The instrument of claim 1, wherein registering comprises using an inter-marker registration when the reference slide is stained differently from the tissue specimen slide.

5. The instrument of claim 1, wherein the reference image comprises a different resolution than the live capture.

6. The instrument of claim 1, wherein the operations further comprise providing a user interface to invoke automated registration algorithms, logical manipulation of annotations and adjust the registration of the one or more annotations on the live image.

7. The instrument of claim 1, wherein the milling image is a live capture of the tissue specimen disposed on the milling slide.

8. The instrument of claim 1, wherein the one or more reference annotations are generated using one or more automated image analysis algorithms.

9. The instrument of claim 1, wherein at least one of the one or more reference images are stained for the presence of a protein or a nucleic acid biomarker.

10. The instrument of claim 9, wherein the tissue specimen disposed on the milling slide is unstained.

11. The instrument of claim 9, wherein the tissue specimen disposed on the milling slide is stained.

14. The instrument of claim 13, wherein the tissue specimen disposed on the milling slide is unstained.

15. The instrument of claim 13, wherein the tissue specimen disposed on the milling slide is stained.